3F1P Transcription date Oct 28, 2008
title Crystal Structure Of A High Affinity Heterodimer Of Hif2 Alpha And Arnt C-Terminal Pas Domains
authors T.H.Scheuermann, D.R.Tomchick, M.Machius, Y.Guo, R.K.Bruick, K.H.Gardner
compound source
Molecule: Endothelial Pas Domain-Containing Protein 1
Chain: A
Fragment: Hif2 Alpha C-Terminal Pas Domain
Synonym: Epas-1, Member Of Pas Protein 2, Basic-Helix-Loop- Helix-Pas Protein Mop2, Hypoxia-Inducible Factor 2 Alpha, Hif-2 Alpha, Hif2 Alpha, Hif-1 Alpha-Like Factor, Hlf;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Epas1, Hif2a, Hypoxia Inducible Factor 2 Alpha, Mop2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Phis-Gb1-Parallel

Molecule: Aryl Hydrocarbon Receptor Nuclear Translocator
Chain: B
Fragment: Arnt C-Terminal Pas Domain
Synonym: Arnt Protein, Dioxin Receptor, Nuclear Translocator, Hypoxia-Inducible Factor 1 Beta, Hif-1 Beta;
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Arnt, Aryl Hydrocarbon Receptor Nuclear Translocator
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Phis-Parallel
symmetry Space Group: C 1 2 1
R_factor 0.141 R_Free 0.167
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.916 82.565 41.032 90.00 106.02 90.00
method X-Ray Diffractionresolution 1.17 Å
note 3F1P is a representative structure
Primary referenceArtificial ligand binding within the HIF2alpha PAS-B domain of the HIF2 transcription factor., Scheuermann TH, Tomchick DR, Machius M, Guo Y, Bruick RK, Gardner KH, Proc Natl Acad Sci U S A. 2009 Jan 13;106(2):450-5. Epub 2009 Jan 7. PMID:19129502
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (133 Kb) [Save to disk]
  • Biological Unit Coordinates (3f1p.pdb1.gz) 128 Kb
  • CSU: Contacts of Structural Units for 3F1P
  • Likely Quarternary Molecular Structure file(s) for 3F1P
  • Structure Factors (536 Kb)
  • Retrieve 3F1P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3F1P from S2C, [Save to disk]
  • Re-refined 3f1p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3F1P in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3F1P
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3F1P, from MSDmotif at EBI
  • Fold representative 3f1p from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3f1p_B] [3f1p] [3f1p_A]
  • SWISS-PROT database: [P27540] [Q99814]
  • Domain organization of [ARNT_HUMAN] [EPAS1_HUMAN] by SWISSPFAM
  • Domains found in 3F1P: [PAC] [PAS ] by SMART
  • Alignments of the sequence of 3F1P with the sequences similar proteins can be viewed for 3F1P's classification [ARNT_HUMAN] [EPAS1_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [ARNT_HUMAN] [EPAS1_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3F1P
  • Community annotation for 3F1P at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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